{ "bcoid": "GLY_000390", "title": "Rat Gene Symbols (UniProtKB)", "description": "The Rat Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for rat [taxid:10116] ...", "filename": "rat_protein_genenames_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "Gene Symbols", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D3ZB44-1...", "Zfp324..." ], [ "Q64627-1...", "Neu2..." ] ], "headers": [ "uniprotkb_ca...", "gene_symbol_..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "gene_symbol_recommended" }, { "type": "string", "label": "gene_symbol_alternative" }, { "type": "string", "label": "orf_name" } ], [ "D3ZB44-1", "Zfp324", "", "rCG_27445" ], [ "Q64627-1", "Neu2", "", "" ], [ "D3ZB48-1", "Hook1", "Hook1_predicted", "rCG_53392" ], [ "A0A0G2JVG5-1", "LOC102552378", "", "" ], [ "P30938-1", "Sstr5", "", "" ], [ "A0A0G2JVG8-1", "Olr410", "", "" ], [ "Q07969-1", "Cd36", "Fat", "" ], [ "A0A096MJY8-1", "Acat2l1", "RGD1562948", "" ], [ "A0A096MJY4-1", "Mef2c", "", "" ], [ "A0A096MJY1-1", "Gpc6", "RGD1563063_predicted", "rCG_36982" ], [ "A0A096MJY2-1", "Stoml3", "Stoml3_predicted", "rCG_49955" ], [ "F7ES73-1", "Nub1", "", "" ], [ "P01946-1", "Hba1", "Hba-a1", "" ], [ "P30937-1", "Sstr4", "", "" ], [ "O35152-1", "Bet1l", "Gs15", "" ], [ "P30936-1", "Sstr3", "", "" ], [ "O35158-1", "Cdon", "Cdo", "" ], [ "Q9QYH1-1", "Mpp4", "Dlg6", "" ], [ "P02764-1", "Orm1", "", "" ], [ "P02767-1", "Ttr", "Tt", "" ], [ "D4A4W8-1", "Tbxt", "T_predicted", "rCG_44967" ], [ "D4A4W0-1", "Olr338", "Olr338_predicted", "rCG_48584" ], [ "D4A4W1-1", "Fam174b", "", "" ], [ "D4A4W2-1", "Slc47a2", "", "" ], [ "F7EN52-1", "Cyp46a1", "", "" ], [ "D4A4W4-1", "Ephx3", "Abhd9_predicted", "rCG_29258" ], [ "D4A4W5-1", "Atp10b", "", "" ], [ "D4A4W6-1", "Slirp", "", "rCG_20695" ], [ "D4A4W7-1", "Mgarp", "", "rCG_50000" ], [ "G3V6I3-1", "Cwc25", "Ccdc49_predicted", "rCG_33263" ], [ "G3V6I6-1", "Adipor1", "", "rCG_46155" ], [ "G3V6I4-1", "Marc1", "", "rCG_20363" ], [ "P39020-1", "Meox2", "Gax", "" ], [ "P39020-1", "Meox2", "Mox-2", "" ], [ "P39020-1", "Meox2", "Mox2", "" ], [ "Q0HA29-1", "Nmnat2", "", "" ], [ "A0A0G2K0T8-1", "Fam25a", "", "rCG_42313" ], [ "A0A0G2K0T7-1", "Zfp35", "", "" ], [ "P01237-1", "Prl", "", "" ], [ "Q4KLI1-1", "Zkscan1", "", "" ], [ "P01230-1", "Lhb", "", "" ], [ "M0RB72-1", "Prr15l", "LOC688163", "rCG_34095" ], [ "P09006-1", "Serpina3n", "Spin2c", "" ], [ "M0RB75-1", "Kdm4b", "", "rCG_45102" ], [ "F1M9D8-1", "Gask1a", "Fam198a", "" ], [ "Q9JHY8-1", "Lig1", "", "" ], [ "Q9JHY1-1", "F11r", "Jam1", "" ], [ "Q9JHY2-1", "Sfxn3", "", "" ], [ "Q9JHY7-1", "Birc5", "", "" ], [ "Q9EQZ1-1", "Tsc22d3", "Dsipi", "" ], [ "Q9EQZ1-1", "Tsc22d3", "Gilz", "" ], [ "F1MAA4-1", "Atp13a2", "", "" ], [ "Q02874-1", "H2afy", "", "" ], [ "Q05474-1", "Fau", "", "" ], [ "Q99JD4-1", "Clasp2", "", "" ], [ "Q99JD1-1", "Defb22", "LOC171412", "rCG_37397" ], [ "Q99JD3-1", "Slc25a21", "Odc", "" ], [ "Q99JD2-1", "Tekt1", "", "" ], [ "F1MAA7-1", "Lamc1", "", "" ], [ "Q02294-1", "Cacna1b", "Cach5", "" ], [ "Q02294-1", "Cacna1b", "Cacnl1a5", "" ], [ "M0R8G5-1", "Igip", "", "" ], [ "Q02293-1", "Fntb", "", "" ], [ "M0R8G9-1", "LOC100910599", "Olr1293", "" ], [ "D3ZGR8-1", "Olr1442", "", "" ], [ "D3ZGR6-1", "Ccdc138", "", "" ], [ "D3ZGR7-1", "Trir", "RGD1564093", "rCG_51149" ], [ "D3ZGR5-1", "LOC100910483", "", "" ], [ "F1MAA2-1", "Cops7a", "", "" ], [ "Q8K5E0-1", "Lpar3", "Edg7", "" ], [ "Q8K5E0-1", "Lpar3", "Lpa3", "" ], [ "Q460M5-1", "Lrfn2", "Salm1", "" ], [ "Q9R1N3-1", "Slc4a7", "Nbc3", "" ], [ "Q9R1N3-1", "Slc4a7", "Nbc", "" ], [ "Q9R1N3-1", "Slc4a7", "Nbc2", "" ], [ "Q9R1N3-1", "Slc4a7", "Nbcn1", "" ], [ "D3ZIY3-1", "Ythdf3", "Ythdf3_predicted", "rCG_41303" ], [ "D3ZSP1-1", "Snrpe", "", "" ], [ "D3ZSP2-1", "LOC100912013", "Nlrp4f", "" ], [ "D3ZSP7-1", "Ttc3", "", "" ], [ "P48550-1", "Kcnj6", "Girk2", "" ], [ "P48550-1", "Kcnj6", "Kcnj7", "" ], [ "D3ZFP5-1", "LOC691352", "", "rCG_35485" ], [ "D3ZFP4-1", "Mcm3", "", "" ] ] }, "readme": "Name\n - Rat Gene Symbols (UniProtKB)\n\nVersion\n - 1.5.23\n\nCreated on\n - 2020-03-15T12:52:59.660127\n\nModified on\n - 2020-04-10T12:19:10.137424\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Rat Gene Symbols (UniProtKB) dataset contains UniProtKB gene symbols/names for rat [taxid:10116] proteins. It contains the recommended gene symbol, alternative gene symbol and ORF gene names assigned by the Gene Name Nomenclature commitees. (for more info - https://www.uniprot.org/help/gene_name). The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - protein alternative name\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB gene symbols for protein accessions from the triplestore containing triples from nt file and extracts the alternative protein names into csv dataset file\n\nExecution Domain\n Scripts - https://github.com/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_genenames_uniprotkb.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_genenames_uniprotkb.csv\n Name: rat_protein_genenames_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_genenames_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"19522\"\n Name: \"orf_name\"\n Description: \"The orf name as a gene name are the names that are temporarily attributed to an open reading frame (ORF) by a sequencing project. This name can be based on a cosmid numbering system\n Unique Values: \"5064\"\n Name: \"gene_symbol_recommended\"\n Description: \"The official gene symbol recommended by the Gene Nomenclature Committees like HGNC\n Unique Values: \"19426\"\n Name: \"gene_symbol_alternative\"\n Description: \"The alternative gene symbols to the recommended recommeded gene symbols in UniProtKB\"\n Unique Values: \"10708\"", "downloadurl": "/ln2data/releases/data/v-1.5.23/reviewed/rat_protein_genenames_uniprotkb.csv" }